BioC 3.2: CHECK report for nethet on oaxaca

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings nethet_1.2.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.2-bioc/meat/nethet.Rcheck’
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘nethet/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘nethet’ version ‘1.2.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘nethet’ can be installed ... [10s/12s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [101s/101s] OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
het_cv_glasso       28.175  0.071  28.268
mixglasso           19.648  0.313  19.978
ggmgsa_multisplit   16.030  0.037  16.077
diffregr_multisplit 11.518  0.083  11.613
diffnet_multisplit   5.139  0.035   5.212
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

* installing *source* package ‘nethet’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -g -O2  -c betamat_diffnet.c -o betamat_diffnet.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o nethet.so betamat_diffnet.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.2-bioc/meat/nethet.Rcheck/nethet/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (nethet)

name	user	system	elapsed
aggpval	0.006	0.001	0.007
bwprun_mixglasso	4.450	0.068	4.558
diffnet_multisplit	5.139	0.035	5.212
diffnet_singlesplit	2.556	0.012	2.570
diffregr_multisplit	11.518	0.083	11.613
diffregr_singlesplit	0.713	0.003	0.717
dot_plot	1.048	0.004	1.054
export_network	0.419	0.001	0.422
generate_2networks	0.056	0.001	0.057
generate_inv_cov	0.068	0.069	0.137
ggmgsa_multisplit	16.030	0.037	16.077
gsea.iriz	0.012	0.000	0.013
het_cv_glasso	28.175	0.071	28.268
invcov2parcor	0.002	0.000	0.002
invcov2parcor_array	0.005	0.000	0.005
logratio	0.002	0.000	0.002
mixglasso	19.648	0.313	19.978
plot_2networks	0.062	0.001	0.064
scatter_plot	1.883	0.008	1.893
screen_aic.glasso	0.651	0.002	0.652
screen_bic.glasso	0.664	0.001	0.666
screen_cv.glasso	1.776	0.003	1.780
screen_cv1se.lasso	0.204	0.002	0.205
screen_cvfix.lasso	0.214	0.001	0.214
screen_cvmin.lasso	0.193	0.001	0.194
screen_cvsqrt.lasso	0.200	0.002	0.202
screen_cvtrunc.lasso	0.186	0.002	0.187
screen_mb	0.010	0.000	0.011
sim_mix	0.002	0.002	0.004
sim_mix_networks	0.008	0.000	0.008

BioC 3.2: CHECK report for nethet on oaxaca

Summary

Command output